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Lines changed: 2839 additions & 2988 deletions

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‎project/jsonld/ak_schema.jsonld‎

Lines changed: 5 additions & 45 deletions
Original file line numberDiff line numberDiff line change
@@ -912,34 +912,6 @@
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}
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]
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},
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{
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"name": "ChainTypeEnum",
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"definition_uri": "https://github.com/airr-knowledge/ak-schema/ChainTypeEnum",
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"from_schema": "https://github.com/airr-knowledge/ak-schema",
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"permissible_values": [
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{
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"text": "IGH"
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},
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{
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"text": "IGK"
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},
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{
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"text": "IGL"
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},
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{
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"text": "TRA"
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},
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{
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"text": "TRB"
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},
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{
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"text": "TRD"
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},
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{
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"text": "TRG"
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}
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]
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},
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{
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"name": "ChainSimilarityTypeEnum",
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"definition_uri": "https://github.com/airr-knowledge/ak-schema/ChainSimilarityTypeEnum",
@@ -2723,19 +2695,6 @@
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"range": "string",
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"@type": "SlotDefinition"
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},
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{
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"name": "chain_type",
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"definition_uri": "https://github.com/airr-knowledge/ak-schema/chain_type",
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"description": "Gene locus (chain type).",
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"from_schema": "https://github.com/airr-knowledge/ak-schema",
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"slot_uri": "https://github.com/airr-knowledge/ak-schema/chain_type",
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"owner": "Chain",
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"domain_of": [
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"Chain"
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],
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"range": "ChainTypeEnum",
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"@type": "SlotDefinition"
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},
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{
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"name": "isotype",
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"definition_uri": "https://github.com/airr-knowledge/ak-schema/isotype",
@@ -3872,6 +3831,7 @@
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"slot_uri": "https://github.com/airr-knowledge/ak-schema/locus",
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"owner": "Rearrangement",
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"domain_of": [
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"Chain",
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"AlleleDescription",
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"GermlineSet",
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"Genotype",
@@ -12178,7 +12138,7 @@
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"complete_vdj",
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"sequence",
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"sequence_aa",
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"chain_type",
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"locus",
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"v_call",
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"d_call",
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"j_call",
@@ -13392,9 +13352,9 @@
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],
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"metamodel_version": "1.7.0",
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"source_file": "ak_schema.yaml",
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"source_file_date": "2025-05-27T17:11:50",
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"source_file_size": 197696,
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"generation_date": "2025-05-27T17:11:53",
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"source_file_date": "2025-05-27T17:15:40",
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"source_file_size": 197199,
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"generation_date": "2025-05-27T17:15:42",
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"@type": "SchemaDefinition",
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"@context": [
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"project/jsonld/ak_schema.context.jsonld",

‎project/jsonschema/ak_schema.schema.json‎

Lines changed: 6 additions & 22 deletions
Original file line numberDiff line numberDiff line change
@@ -1964,10 +1964,6 @@
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"null"
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]
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},
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"chain_type": {
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"$ref": "#/$defs/ChainTypeEnum",
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"description": "Gene locus (chain type)."
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},
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"complete_vdj": {
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"description": "Complete VDJ flag.",
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"type": [
@@ -2006,6 +2002,9 @@
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"null"
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]
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},
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"locus": {
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"$ref": "#/$defs/LocusEnum"
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},
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"sequence": {
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"description": "Nucleotide sequence.",
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"type": [
@@ -2078,20 +2077,6 @@
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"title": "ChainSimilarityTypeEnum",
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"type": "string"
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},
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"ChainTypeEnum": {
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"description": "",
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"enum": [
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"IGH",
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"IGK",
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"IGL",
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"TRA",
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"TRB",
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"TRD",
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"TRG"
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],
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"title": "ChainTypeEnum",
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"type": "string"
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},
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"Chain__identifier_optional": {
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"additionalProperties": false,
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"description": "",
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"null"
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]
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},
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"chain_type": {
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"$ref": "#/$defs/ChainTypeEnum",
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"description": "Gene locus (chain type)."
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},
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"complete_vdj": {
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"description": "Complete VDJ flag.",
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"type": [
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"null"
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]
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},
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"locus": {
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"$ref": "#/$defs/LocusEnum"
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},
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"sequence": {
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"description": "Nucleotide sequence.",
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"type": [

‎project/linkml/ak_schema.yaml‎

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Original file line numberDiff line numberDiff line change
@@ -668,24 +668,6 @@ enums:
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other disease course:
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text: other disease course
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meaning: ONTIE:0003547
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ChainTypeEnum:
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name: ChainTypeEnum
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from_schema: https://github.com/airr-knowledge/ak-schema
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permissible_values:
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IGH:
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text: IGH
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IGK:
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text: IGK
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IGL:
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text: IGL
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TRA:
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text: TRA
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TRB:
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text: TRB
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TRD:
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text: TRD
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TRG:
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text: TRG
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ChainSimilarityTypeEnum:
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name: ChainSimilarityTypeEnum
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from_schema: https://github.com/airr-knowledge/ak-schema
@@ -1556,11 +1538,6 @@ slots:
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description: Nucleotide sequence.
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from_schema: https://github.com/airr-knowledge/ak-schema
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range: string
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chain_type:
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name: chain_type
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description: Gene locus (chain type).
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from_schema: https://github.com/airr-knowledge/ak-schema
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range: ChainTypeEnum
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isotype:
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name: isotype
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description: The isotype of the chain
@@ -5867,7 +5844,7 @@ classes:
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- complete_vdj
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- sequence
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- sequence_aa
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- chain_type
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- locus
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- v_call
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- d_call
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- j_call

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